DNA glycosylate



DNA glycosylase (DG) are enzymes which remove damaged DNA bases by flipping them out of the double helix followed by their cleavage. Monofunctional DG have only glycosylase activity; bifunctional DG also act as lysates; ADG, UDG, TDG remove adenine, uracil, thymine from DNA. ADG is also called MutY. Smug1 is a single-strand selective monofunctional UDG. OxDG recognize oxidized bases. The human 8-oxoguanine GD is named hOgg1. AlkDG recognize methylated adenine. Formamidopyrimidine DG (FPG) or MutM removes oxidized purines from damaged DNA.

Adenine DG
3n5n – hADG catalytic domain – human 1yuo - hADG catalytic domain (mutant)  1x51 – hADG NUDIX domain]] - NMR 3fsp, 3fsq – GsADG + DNA – Geobacillus stearothermophilus 3g0q, 1vrl, 1rrq, 1rrs - GsADG (mutant) + DNA – Bacillus stearothermophilus 1wef, 1weg, 1kg4, 1kg5, 1kg6, 1kg7, 1kqj - EcADG catalytic domain (mutant) - Escherichia coli 1kg2, 1kg3, 1muy - EcADG catalytic domain 1mun - EcADG catalytic domain (mutant)  1wei, 1mud - EcADG catalytic domain (mutant) + adenine

Uracil DG
3a7n – MtUDG – Mycobacterium tuberculosis 2zhx – MtDG + protein inhibitor 1akz - hUDG (mutant)  2oxm, 2oyt, 1q3f – hUDG + DNA 1ssp, 2ssp - hUDG + DNA+ uracil 1emh, 1emj, 4skn – hUDG (mutant) + DNA 3fcf, 3fci, 3fck, 3fcl, 2hxm – hUDG + inhibitor 1ugh - hUDG (mutant) + protein inhibitor 2jhq – UDG – Vibrio cholerae<BR /> 3cxm – UDG residues 129-373 + 5-bromo-uracil<BR /> 2owq, 2owr – UDG (mutant) – Vaccinia virus<BR /> 2d3y, 1ui0, 1ui1 – TtUDG – Thermus thermophilus<BR /> 2dp6, 2dem, 2ddg – TtUDG + DNA<BR /> 2j8x – UDG glycosylase domain + protein inhibitor – Epstein-Barr virus<BR /> 1lqj – EcUDG<BR /> 1flz - EcUDG (mutant) <BR /> 2eug, 3eug, 1eug, 4eug, 5eug - EcUDG (mutant) + uracil<BR /> 1mwj, 1mwi, 1mtl – EcUDG + DNA<BR /> 1lqg, 1lqm, 1eui, 1uug - EcUDG + protein inhibitor<BR /> 2uug - EcUDG (mutant) + protein inhibitor<BR /> 2c53, 2c56 – HhUDG (mutant) – Human herpesvirus<BR /> 1lau – HhUDG + DNA<BR /> 1udh, 1udg – HsUDG _ Herpes simplex virus<BR /> 1udi - HsUDG + protein inhibitor<BR /> 2c2p, 2boo – DrUDG – Deinococcus radiodurans<BR /> 2c2q – DrUDG (mutant) <BR /> 1vk2, 1l9g – TmUDG - Thermotoga maritime<BR /> 1okb – UDG catalytic domain – Atlantic cod

Smug1 Uracil DG
1oe4, 1oe5, 1oe6 – UDG Smug1 + DNA– Xenopus laevis

Thymine DG
2rba – hTDG core domain + DNA<BR /> 2d07, 1wyw – hTDG central region + SUMO-3<BR /> 1kea – TDG – Methanothermobacter thermautotrophicus<BR /> 1mug – EcTDG

Human 8-oxoguanine DG
Update June 2011

1ko9 – hOgg1<BR /> 2xhi, 3ih7, 3ktu, 1hu0, 1fn7 - hOgg1 + DNA<BR /> 1lwv, 1lww, 1lwy - hOgg1 + DNA<BR /> + guanine derivative<BR /> 2nob, 2noe, 2nof, 2noh, 2noi, 2nol, 2noz, 2i5w, 1yqk, 1yql, 1yqm, 1yqr, 1n39, 1n3a, 1n3c - hOgg1 (mutant) + DNA<BR /> 1m3h, 3ih7 - hOgg1 core fragment (mutant) + DNA<BR /> 1m3q, 1ebm - hOgg1 core fragment (mutant) + DNA + guanine derivative

8-oxoguanine DG
3n0u – TmOxDG<BR /> 3knt - MjOxDG (mutant) + DNA – Methanocaldococcus jannaschii<BR /> 3fhf - MjOxDG<BR /> 3go8, 3gp1, 3gpp, 3gpu, 3gpx, 3gpy, 3gq3, 3gq4, 3gq5 – GsOxDG (mutant) + DNA<BR /> 3f0z - CaOxDG – Clostridium acetobutylicum<BR /> 3f10 – CaOxDG + 8-oxoguanosine<BR /> 3i0w, 3i0x - CaOxDG (mutant) + DNA<BR /> 3fhg - OxDG (mutant) – Sulfolobus solfataricus<BR /> 1xqo, 1xqp – OxDG – Pyrobaculum aerophilum

Methyladenine DG
3qi5, 1ewn, 1f4r, 1f6o, 1bnk – hAlkDG + DNA<BR /> 3bvs – BcAlkDG – Bacillus cereus<BR /> 3jx7, 3jxy, 3jxz, 3jy1 - BcAlkDG + DNA<BR /> 1pvs, 1p7m, 1mpg – EcAlkDG<BR /> 1nku, 1lmz – EcAlkDG - NMR<BR /> 3ogd, 3oh6, 3oh9 - EcAlkDG (mutant) + DNA<BR /> 3d4v, 3cvs, 3cvt, 3cw7, 3cwa, 3cws, 3cwt, 3cwu, 1diz - EcAlkDG + DNA<BR /> 2ofk – StAlkDG – Salmonella typhi<BR /> 2ofi – StAlkDG + DNA<BR /> 2jhj, 2jhn – AlkDG – Archaeoglobus fulgidus<BR /> 2jg6 – AlkDG – Staphylococcus aureus<BR /> 1pu6 – HpAlkDG – Helicobacter pylori<BR /> 1pu7, 1pu8 – HpAlkDG + adenine derivative

Formamidopyrimidine DG
3c58, 1xc8, 1tdz, 1pji, 1pm5, 1nnj - LlFpg+ DNA – Lactococcus lactis<BR /> 1pjj, 1kfv - LlFpg (mutant) + DNA<BR /> 1k82 - EcFpg+ DNA<BR /> 3jr4, 3jr5, 2f5n, 2f5o, 2f5p, 2f5q, 2f5s, 1r2y, 1r2z – GsFpg (mutant) + DNA<BR /> 1l1t, 1l1z, 1l2b, 1l2c, 1l2d - GsFpg + DNA<BR /> 3a42, 3a45, 3a46 – Fpg – Acanthamoeba polyphaga minivirus<BR />

2ea0, 2opf, 2oq4 – EcGD NEI + DNA<BR /> 2fcc – Pyrimidine GD + DNA – Enterobacteria phage T4